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Double mutant Plasmodium falciparum dihydrofolate reductase-thymidylate synthase (PfDHFR-TS-K1, C59R+S108N) complexed with Trimethoprim (TOP), NADPH and dUMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QGT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 297 28.5% PEG4000, 0.8 M CH3COONH4 0.08 M CH3COONa
Crystal Properties Matthews coefficient Solvent content 2.47 55.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.332 α = 90 b = 153.739 β = 90 c = 164.119 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS 2003-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU R-AXIS IV 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.6 51.54 97 0.083 0.994 10.1 4.17 43724
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 0.523
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3QGT 2.6 39.782 43660 2178 97.373 0.201 0.1979 0.2072 0.2531 0.256 57.552
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.322 -0.724 0.402
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.228 r_dihedral_angle_3_deg 19.775 r_dihedral_angle_4_deg 18.773 r_lrange_it 8.255 r_lrange_other 8.242 r_dihedral_angle_1_deg 8.213 r_scangle_it 5.915 r_scangle_other 5.915 r_mcangle_it 5.714 r_mcangle_other 5.713
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.228 r_dihedral_angle_3_deg 19.775 r_dihedral_angle_4_deg 18.773 r_lrange_it 8.255 r_lrange_other 8.242 r_dihedral_angle_1_deg 8.213 r_scangle_it 5.915 r_scangle_other 5.915 r_mcangle_it 5.714 r_mcangle_other 5.713 r_dihedral_angle_other_2_deg 4.694 r_scbond_it 3.869 r_scbond_other 3.869 r_mcbond_it 3.772 r_mcbond_other 3.768 r_angle_refined_deg 1.602 r_angle_other_deg 1.166 r_symmetry_nbd_refined 0.248 r_nbd_other 0.24 r_nbd_refined 0.21 r_symmetry_nbd_other 0.189 r_xyhbond_nbd_refined 0.18 r_nbtor_refined 0.176 r_symmetry_xyhbond_nbd_refined 0.114 r_symmetry_xyhbond_nbd_other 0.096 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.067 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9110 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 190
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction CrystalClear data scaling MOLREP phasing